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A comparison of SWCs measured by the CRNP and a neutron probe from access tubes in circles with different radii conservatively indicated that the most probable experimental footprint radius was >200 m.
To explore whether there is a hidden relationship to codon usage, the authors should assign experimental footprint densities to codons randomly.
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The wild-type U-1 was found to have the most tightly folded catalytic core, consistent with experimental footprinting data.
Here, we present the results of the first experimental analysis of footprints in a sample of humans walking with different gaits and compare our results to the Laetoli prints.
We compared our experimental data with Laetoli footprint depths calculated from contour maps of the footprint trails [21] (Table S1).
The difference is explained by the experimental conditions: the small footprints were revealed only after we left out cycloheximide, a translation inhibitor commonly used to stabilize ribosomes on mRNA for ribosome profiling.
For cases in which other experimental constraints (hydroxyl radical footprinting for the P4 P6 domain and class I ligase; tertiary information from M on the P4 P6 domain) were available, these constraints were also included in the modeling.
DNA-binding specificities have traditionally been determined by experimental techniques such as DNase I footprinting and electromobility shift assay [ 8, 9].
On the experimental front, we have highlighted oxidative footprinting of the receptor surface, which is emerging as a method to complement epitope-mapping data from techniques, such as STD NMR.
Footprints were collected from the experimental (E, left) and normal (N, right) sides.
Other established experimental methods such as staggered promoter deletions or DNAseI footprints provide high-resolution views of single promoters but are infeasible for large-scale analysis.
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